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Johnathan Jia
Data scientist interested in development and implementation of new deep learning algorithms
Professional Experience
Data Analyst Associate
Baylor College of Medicine
Houston, TX
2023
- Developed automated pipeline for processing of NGS data with Docker, Python, and R
- Applied scRNA/snRNA-seq pipelines for mechanistic analysis of transcriptomic data
- Collaborated with software engineers and clinical geneticists to leverage LLMs for precision diagnosis of rare Mendelian genetic disorders
- Supervised bioinformatics team to work with collaborators in using algorithms and data to drive hypothesis-driven research conclusions
- Worked with Dr. Jeong and graduate students to develop mentor-mentee matching tool using LLMs with RAG and RLHF
Graduate Research Assistant
UTHSC Houston Graduate School of Biomedical Sciences
Houston, TX
2022 - 2020
- Developed a convolutional neural network with self-attention architecture using TensorFlow/Keras libraries to identifying high confidence transcription factor targets for HTLV-1. Available on Github.
- Performed pseudotime analysis on scRNAseq data to infer which transcription factor programs drive COVID-19 infection severity with Seurat and DriVAER
Research Assistant I
MD Anderson Cancer Center
Houston, TX
2020 - 2019
- Processed, prepared, and stained patient samples for Nanostring and Cytometry
Education
M.S. in Quantitative Sciences
UTHSC Houston Graduate School of Biomedical Sciences
Houston, TX
2022 - 2020
- Thesis: DeepHTLV: a deep learning model for detecting and elucidating human T-cell leukemia virus type 1 integration sites
UTHSC Houston McGovern School of Medicine
Houston, TX
2018 - 2015
B.S. in Biology, B.A. in Chemistry
Emory University
Atlanta, GA
2015 - 2011
- Thesis: Investigating heterogeneity in the dynamics of virus and immune response
Awards
Best Quantitative Sciences Program Seminar Presentation
UTHSC Houston Graduate School of Biomedical Sciences
Houston, TX
2022
First Prize Poster Presentation
UTHSC Houston Graduate School of Biomedical Sciences
Houston, TX
2022
Rheumatology Research Foundation Research Award
UTHSC Houston McGovern School of Medicine
Houston, TX
2016